Edited by Jonathan Wren, Ramin Homayouni, Robert Doerksen, Inimary Toby, Prashanti Manda, Shraddha Thakkar, Bindu Nanduri.
Volume 20 Supplement 2
Proceedings of the 15th Annual MCBIOS Conference
Research
Publication of this supplement has not been supported by sponsorship. Information about the source of funding for publication charges can be found in the individual articles. The articles have undergone the journal's standard peer review process for supplements. The Supplement Editors declare that they have no competing interests.
Starkville, MS, USAMarch 29 - 31 2018
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Citation: BMC Bioinformatics 2019 20(Suppl 2):95
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Evaluation of linear models and missing value imputation for the analysis of peptide-centric proteomics
Several methods to handle data generated from bottom-up proteomics via liquid chromatography-mass spectrometry, particularly for peptide-centric quantification dealing with post-translational modification (PTM...
Citation: BMC Bioinformatics 2019 20(Suppl 2):102 -
Similarities and differences between variants called with human reference genome HG19 or HG38
Reference genome selection is a prerequisite for successful analysis of next generation sequencing (NGS) data. Current practice employs one of the two most recent human reference genome versions: HG19 or HG38....
Citation: BMC Bioinformatics 2019 20(Suppl 2):101 -
Evaluation of Sirtuin-3 probe quality and co-expressed genes using literature cohesion
Gene co-expression studies can provide important insights into molecular and cellular signaling pathways. The GeneNetwork database is a unique resource for co-expression analysis using data from a variety of t...
Citation: BMC Bioinformatics 2019 20(Suppl 2):104 -
Genome-wide tracts of homozygosity and exome analyses reveal repetitive elements with Barrets esophagus/esophageal adenocarcinoma risk
Barrett’s esophagus (BE) is most commonly seen as the condition in which the normal squamous epithelium lining of the esophagus is replaced by goblet cells. Many studies show that BE is a predisposing factor f...
Citation: BMC Bioinformatics 2019 20(Suppl 2):98 -
MNEMONIC: MetageNomic Experiment Mining to create an OTU Network of Inhabitant Correlations
The number of publicly available metagenomic experiments in various environments has been rapidly growing, empowering the potential to identify similar shifts in species abundance between different experiments...
Citation: BMC Bioinformatics 2019 20(Suppl 2):96 -
Multispecies genome-wide analysis defines the MAP3K gene family in Gossypium hirsutum and reveals conserved family expansions
Gene families are sets of structurally and evolutionarily related genes – in one or multiple species – that typically share a conserved biological function. As such, the identification and subsequent analyses ...
Citation: BMC Bioinformatics 2019 20(Suppl 2):99 -
Local edge-enhanced active contour for accurate skin lesion border detection
Dermoscopy is one of the common and effective imaging techniques in diagnosis of skin cancer, especially for pigmented lesions. Accurate skin lesion border detection is the key to extract important dermoscopic...
Citation: BMC Bioinformatics 2019 20(Suppl 2):91 -
Partition-based optimization model for generative anatomy modeling language (POM-GAML)
This paper presents a novel approach for Generative Anatomy Modeling Language (GAML). This approach automatically detects the geometric partitions in 3D anatomy that in turn speeds up integrated non-linear opt...
Citation: BMC Bioinformatics 2019 20(Suppl 2):105 -
Predicting protein residue-residue contacts using random forests and deep networks
The ability to predict which pairs of amino acid residues in a protein are in contact with each other offers many advantages for various areas of research that focus on proteins. For example, contact predictio...
Citation: BMC Bioinformatics 2019 20(Suppl 2):100 -
Study of serious adverse drug reactions using FDA-approved drug labeling and MedDRA
Adverse Drug Reactions (ADRs) are of great public health concern. FDA-approved drug labeling summarizes ADRs of a drug product mainly in three sections, i.e., Boxed Warning (BW), Warnings and Precautions (WP),...
Citation: BMC Bioinformatics 2019 20(Suppl 2):97 -
Keanu: a novel visualization tool to explore biodiversity in metagenomes
One of the main challenges when analyzing complex metagenomics data is the fact that large amounts of information need to be presented in a comprehensive and easy-to-navigate way. In the process of analyzing F...
Citation: BMC Bioinformatics 2019 20(Suppl 2):103
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